Comprehensive Genome Analysis of 6,000 USA SARS-CoV-2 Isolates Reveals Haplotype Signatures and Localized Transmission Patterns by State and by Country

Lishuang Shen; Jennifer Dien Bard; Jennifer Dien Bard; Jaclyn A. Biegel; Jaclyn A. Biegel; Alexander R. Judkins; Alexander R. Judkins; Xiaowu Gai; Xiaowu Gai

doi:10.3389/fmicb.2020.573430

Frontiers in Microbiology (Sep 2020)

Comprehensive Genome Analysis of 6,000 USA SARS-CoV-2 Isolates Reveals Haplotype Signatures and Localized Transmission Patterns by State and by Country

Lishuang Shen,
Jennifer Dien Bard,
Jennifer Dien Bard,
Jaclyn A. Biegel,
Jaclyn A. Biegel,
Alexander R. Judkins,
Alexander R. Judkins,
Xiaowu Gai,
Xiaowu Gai

Affiliations

Lishuang Shen: Department of Pathology and Laboratory Medicine, Children’s Hospital Los Angeles, Los Angeles, CA, United States
Jennifer Dien Bard: Department of Pathology and Laboratory Medicine, Children’s Hospital Los Angeles, Los Angeles, CA, United States
Jennifer Dien Bard: Department of Pathology, Keck School of Medicine, University of Southern California, Los Angeles, CA, United States
Jaclyn A. Biegel: Department of Pathology and Laboratory Medicine, Children’s Hospital Los Angeles, Los Angeles, CA, United States
Jaclyn A. Biegel: Department of Pathology, Keck School of Medicine, University of Southern California, Los Angeles, CA, United States
Alexander R. Judkins: Department of Pathology and Laboratory Medicine, Children’s Hospital Los Angeles, Los Angeles, CA, United States
Alexander R. Judkins: Department of Pathology, Keck School of Medicine, University of Southern California, Los Angeles, CA, United States
Xiaowu Gai: Department of Pathology and Laboratory Medicine, Children’s Hospital Los Angeles, Los Angeles, CA, United States
Xiaowu Gai: Department of Pathology, Keck School of Medicine, University of Southern California, Los Angeles, CA, United States

DOI: https://doi.org/10.3389/fmicb.2020.573430
Journal volume & issue: Vol. 11

Abstract

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Genomic analysis of SARS-CoV-2 sequences is crucial in determining the effectiveness of prudent safer at home measures in the United States (US). By haplotype analysis of 6,356 US isolates, we identified a pattern of strongly localized outbreaks at the city-, state-, and country-levels, and temporal transmissions. This points to the effectiveness of existing travel restriction policies and public health measures in reducing the transmission of SARS-CoV-2.

Published in Frontiers in Microbiology

ISSN: 1664-302X (Online)
Publisher: Frontiers Media S.A.
Country of publisher: Switzerland
LCC subjects: Science: Microbiology
Website: http://www.frontiersin.org/journals/microbiology

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